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NCBI C++ ToolKit: include/gui/widgets/phylo_tree/phylo_tree_ps.hpp Source File

{ m_PhysicsParmsVolatile.m_ElectricalRepulsion =

; }

{

m_PhysicsParmsVolatile.m_ElectricalRepulsion; }

(

s) { m_PhysicsParmsVolatile.m_Step = s; }

()

{

m_PhysicsParmsVolatile.m_Step; }

(

d) { m_PhysicsParmsVolatile.m_Damping = d; }

()

{

m_PhysicsParmsVolatile.m_Damping; }

(

k) { m_PhysicsParmsVolatile.m_EdgeK = k; }

()

{

m_PhysicsParmsVolatile.m_EdgeK; }

{ m_PhysicsParmsVolatile.m_RepulsionDist = d; }

{

m_PhysicsParmsVolatile.m_RepulsionDist; }

{ m_PhysicsParmsVolatile.m_VelocityThresholdK = k; }

{

m_PhysicsParmsVolatile.m_VelocityThresholdK; }

()

{

m_IsDone; }

UpdateAndSynch();

() : from_idx(-1), to_idx(-1),

(0.0f), rest_len_inv(0.0f), k(1.0f) {}

: from_idx(idx1), to_idx(idx2),

(0.0f), rest_len_inv(0.0f), k(1.0f) {}

, constrained(0.0f) {}

x_UpdateVoxels();

x_ApplyRepulsiveForcesHashed();

x_ApplyRepulsiveForces();

x_ApplyNeighborCellForces(std::vector<int>& cell_nodes,

float m_RepulsionDist2

Square of current effective repulsion distance.

void SetPhysicsParms(const PhysicsParms &p)

Get/Set all the current physics parms.

float GetRepulsionDist() const

float m_RepulsionInv_x_ElectricalRepulsion

Inverse of repulsion dist * electrical repulsion factor.

void SetStep(float s)

Get/Set timestep.

PhysicsParms m_PhysicsParmsSafe

Updated from m_PhysicsPamsVolatile when safe to do so.

float m_MaxVelocity

The maximum velocity is the maximum node velocity during the last call to UpdateAndSynch()

float m_edge_forces_t

For timer values.

void SetVelocityThresholdK(float k)

Get/Set scaling factor for velocity threshold below which system stops.

float m_bound_update_safe_t

PhysicsParms getPhysicParms()

PhysicsParms m_PhysicsParmsVolatile

(potentially) updated from other thread(s)

void SetElectricalRepulsion(float r)

Get/Set particle system parameters.

void SetDamping(float d)

Get/Set damping parameter.

int m_node_node_interactions_safe_t

std::vector< CVect2< int > > m_ValidateGrid

Only used for debugging.

float m_edge_forces_safe_t

bool m_IsDone

If true, system has slowed down to the point where continuing to update it is not necessary.

std::vector< Node > m_Nodes

Set of all nodes.

float GetVelocityThresholdK() const

float m_DefaultEdgeLen

Default length for all edges in system.

TVec & GetMinPos()

Tracks bounding rectangle for all nodes.

float m_AdaptiveStep

Multiplier for m_PhysicsParmsSafe.m_Step to allow step size to be adaptively lowered if system appear...

void SetEdgeK(float k)

Get/Set edge stiffness.

float m_node_forces_safe_t

float GetMaxVelocity() const

Get max velocity from last call to UpdateAndSynch.

TVec m_MinPos

Tracks bounding rectangle for all nodes.

float m_LogDistMax

For debug-drawing.

void SetRepulsionDist(float d)

Get/Set maximum effective repulsion distance.

std::vector< Edge > m_Edges

Set of all edges.

int m_node_node_interactions_t

float & GetDefaultEdgeLen()

Default length for all edges in system.

std::vector< Node > & GetNodes()

Set of all nodes.

std::vector< Edge > & GetEdges()

Set of all edges.

bool IsDone() const

Return true if velocity has dropped below a threshold that indicates the system is stable (and doesn'...

float GetElectricalRepulsion() const

float m_PrevMaxVelocity

Maximum velocity in previous update.

CSpatialHash2D< std::vector< int > > m_NodeGrid

Grid that keeps track of adjacent nodes.

CPhyloTree * m_Tree

Root node of tree.

std::vector< CVect2< int > > m_ValidateNsq

Tree subclass also has functions and data needed for rendering and selection.

class CSpatialHash2D Class for simple 2D spatial organization that allows for some collision checking...

#define END_NCBI_SCOPE

End previously defined NCBI scope.

#define BEGIN_NCBI_SCOPE

Define ncbi namespace.

#define NCBI_GUIWIDGETS_PHYLO_TREE_EXPORT

Defines to provide correct exporting from DLLs in Windows.

Portable reference counted smart and weak pointers using CWeakRef, CRef, CObject and CObjectEx.

double r(size_t dimension_, const Int4 *score_, const double *prob_, double theta_)

Data structure for an edge between two nodes.

Data structure for a node in the particle system.

CPhyloTree::TTreeIdx tree_node_idx

float m_VelocityThresholdK

factor to scale final velocity threshold

float m_ElectricalRepulsion

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